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    alkb-8 Fe2OG dioxygenase domain-containing protein [ Caenorhabditis elegans ]

    Gene ID: 175476, updated on 28-Oct-2024

    Summary

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    Official Symbol
    alkb-8
    Official Full Name
    Fe2OG dioxygenase domain-containing protein
    Primary source
    WormBase:WBGene00007581
    Locus tag
    CELE_C14B1.10
    See related
    AllianceGenome:WB:WBGene00007581
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Predicted to enable tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity and tRNA binding activity. Predicted to be involved in tRNA methylation and tRNA wobble uridine modification. Located in cytoplasm. Is expressed in several structures, including body wall musculature; egg-laying apparatus; intestinal cell; pharyngeal muscle cell; and somatic gonad. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 71. Orthologous to human ALKBH8 (alkB homolog 8, tRNA methyltransferase). [provided by Alliance of Genome Resources, Oct 2024]
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    Genomic context

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    See alkb-8 in Genome Data Viewer
    Location:
    chromosome: III
    Exon count:
    7
    Sequence:
    Chromosome: III; NC_003281.10 (3709330..3713348)

    Chromosome III - NC_003281.10Genomic Context describing neighboring genes Neighboring gene WD repeat-containing protein wdr-5.1 Neighboring gene 2-(3-amino-3-carboxypropyl)histidine synthase subunit 1 Neighboring gene Dynein regulatory complex subunit 7;SWIM-type domain-containing protein Neighboring gene FGFR1 oncogene partner 2 homolog Neighboring gene pseudo

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003281.10

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. ALKB-8, a 2-Oxoglutarate-Dependent Dioxygenase and S-Adenosine Methionine-Dependent Methyltransferase Modulates Metabolic Events Linked to Lysosome-Related Organelles and Aging in C. elegans. Kollárová J, et al. Folia Biol (Praha), 2018. PMID 30338756
    2. Crystal structure and RNA binding properties of the RNA recognition motif (RRM) and AlkB domains in human AlkB homolog 8 (ABH8), an enzyme catalyzing tRNA hypermodification. Pastore C, et al. J Biol Chem, 2012 Jan 13. PMID 22065580, Free PMC Article
    3. Systematic transcriptome analysis associated with physiological and chronological aging in Caenorhabditis elegans. Ham S, et al. Genome Res, 2022 Nov-Dec. PMID 36351769, Free PMC Article
    4. A global analysis of genetic interactions in Caenorhabditis elegans. Byrne AB, et al. J Biol, 2007. PMID 17897480, Free PMC Article
    5. Novel LOTUS-domain proteins are organizational hubs that recruit C. elegans Vasa to germ granules. Cipriani PG, et al. Elife, 2021 Jul 5. PMID 34223818, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. downregulation of alkb-8 increases detection of lysosome-related organelles.
      Title: ALKB-8, a 2-Oxoglutarate-Dependent Dioxygenase and S-Adenosine Methionine-Dependent Methyltransferase Modulates Metabolic Events Linked to Lysosome-Related Organelles and Aging in C. elegans.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables S-adenosylmethionine-dependent methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA (5-carboxymethyluridine(34)-5-O)-methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA methyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in tRNA methylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in tRNA wobble uridine modification IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Fe2OG dioxygenase domain-containing protein
    NP_497751.1
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003281.10 Reference assembly

      Range
      3709330..3713348
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_065350.6 → NP_497751.1  Fe2OG dioxygenase domain-containing protein [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_497751.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9U3P9
      Conserved Domains (3) summary
      pfam13649
      Location:396 → 480
      Methyltransf_25; Methyltransferase domain
      cl17169
      Location:45 → 125
      RRM_SF; RNA recognition motif (RRM) superfamily
      cl21496
      Location:160 → 319
      2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily
    Nucleotide Protein
    Heading Accession and Version

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